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        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

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        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        Report generated on 2024-01-30, 11:57 CET based on data in:

        General Statistics

        Showing 328/328 rows and 4/6 columns.
        Sample Name% Dups% GCMedian Read LengthM Seqs
        SRR13434505_1
        26.2%
        49%
        151 bp
        16.5
        SRR13434505_2
        24.4%
        48%
        151 bp
        16.5
        SRR13434506_1
        12.2%
        50%
        151 bp
        18.3
        SRR13434506_2
        10.8%
        50%
        151 bp
        18.3
        SRR13434507_1
        15.3%
        47%
        151 bp
        17.3
        SRR13434507_2
        14.3%
        46%
        151 bp
        17.3
        SRR13434508_1
        25.5%
        51%
        151 bp
        20.5
        SRR13434508_2
        19.4%
        52%
        151 bp
        20.5
        SRR13434509_1
        16.3%
        50%
        151 bp
        17.2
        SRR13434509_2
        14.5%
        50%
        151 bp
        17.2
        SRR13434510_1
        14.1%
        52%
        151 bp
        16.5
        SRR13434510_2
        12.9%
        52%
        151 bp
        16.5
        SRR13434511_1
        17.7%
        49%
        151 bp
        21.5
        SRR13434511_2
        16.0%
        49%
        151 bp
        21.5
        SRR13434512_1
        23.4%
        48%
        151 bp
        21.6
        SRR13434512_2
        21.9%
        48%
        151 bp
        21.6
        SRR13434513_1
        28.1%
        49%
        151 bp
        23.1
        SRR13434513_2
        25.1%
        49%
        151 bp
        23.1
        SRR13434514_1
        14.9%
        49%
        151 bp
        12.1
        SRR13434514_2
        13.4%
        49%
        151 bp
        12.1
        SRR13434516_1
        15.7%
        47%
        151 bp
        15.3
        SRR13434516_2
        14.0%
        47%
        151 bp
        15.3
        SRR13434517_1
        15.3%
        48%
        151 bp
        15.0
        SRR13434517_2
        13.8%
        48%
        151 bp
        15.0
        SRR13434518_1
        14.1%
        48%
        151 bp
        18.9
        SRR13434518_2
        13.2%
        48%
        151 bp
        18.9
        SRR13434519_1
        12.2%
        47%
        151 bp
        13.3
        SRR13434519_2
        11.3%
        47%
        151 bp
        13.3
        SRR13434520_1
        15.6%
        50%
        151 bp
        17.9
        SRR13434520_2
        13.8%
        50%
        151 bp
        17.9
        SRR13434521_1
        17.6%
        48%
        151 bp
        19.8
        SRR13434521_2
        15.2%
        48%
        151 bp
        19.8
        SRR13434522_1
        16.8%
        49%
        151 bp
        18.1
        SRR13434522_2
        14.9%
        49%
        151 bp
        18.1
        SRR13434523_1
        17.8%
        50%
        151 bp
        15.7
        SRR13434523_2
        16.1%
        50%
        151 bp
        15.7
        SRR13434524_1
        14.2%
        54%
        126 bp
        22.5
        SRR13434524_2
        14.1%
        53%
        126 bp
        22.5
        SRR13434525_1
        7.4%
        49%
        126 bp
        9.8
        SRR13434525_2
        7.4%
        49%
        126 bp
        9.8
        SRR13434527_1
        9.7%
        52%
        126 bp
        8.3
        SRR13434527_2
        10.1%
        52%
        126 bp
        8.3
        SRR13434528_1
        13.8%
        52%
        126 bp
        18.0
        SRR13434528_2
        13.8%
        51%
        126 bp
        18.0
        SRR13434529_1
        14.9%
        51%
        126 bp
        13.7
        SRR13434529_2
        14.9%
        51%
        126 bp
        13.7
        SRR13434530_1
        14.2%
        49%
        126 bp
        19.7
        SRR13434530_2
        14.2%
        49%
        126 bp
        19.7
        SRR13434531_1
        12.7%
        51%
        126 bp
        12.5
        SRR13434531_2
        12.9%
        50%
        126 bp
        12.5
        SRR13434532_1
        15.7%
        50%
        126 bp
        25.3
        SRR13434532_2
        15.8%
        50%
        126 bp
        25.3
        SRR13434533_1
        20.5%
        50%
        126 bp
        18.5
        SRR13434533_2
        20.3%
        50%
        126 bp
        18.5
        SRR13434534_1
        20.5%
        52%
        126 bp
        17.9
        SRR13434534_2
        20.6%
        52%
        126 bp
        17.9
        SRR13434535_1
        12.3%
        50%
        126 bp
        14.0
        SRR13434535_2
        12.3%
        49%
        126 bp
        14.0
        SRR13434536_1
        15.7%
        49%
        126 bp
        17.8
        SRR13434536_2
        15.0%
        49%
        126 bp
        17.8
        SRR13434538_1
        14.4%
        50%
        126 bp
        16.5
        SRR13434538_2
        14.1%
        50%
        126 bp
        16.5
        SRR13434539_1
        11.7%
        50%
        126 bp
        14.9
        SRR13434539_2
        11.7%
        50%
        126 bp
        14.9
        SRR13434540_1
        11.7%
        50%
        126 bp
        16.5
        SRR13434540_2
        11.5%
        50%
        126 bp
        16.5
        SRR13434541_1
        12.4%
        52%
        126 bp
        16.7
        SRR13434541_2
        12.3%
        52%
        126 bp
        16.7
        SRR13434542_1
        15.1%
        47%
        126 bp
        16.3
        SRR13434542_2
        14.4%
        47%
        126 bp
        16.3
        SRR13434543_1
        16.6%
        49%
        126 bp
        23.2
        SRR13434543_2
        16.7%
        49%
        126 bp
        23.2
        SRR13434544_1
        9.2%
        51%
        126 bp
        15.3
        SRR13434544_2
        9.2%
        50%
        126 bp
        15.3
        SRR13434545_1
        13.4%
        49%
        126 bp
        21.5
        SRR13434545_2
        13.2%
        48%
        126 bp
        21.5
        SRR13434546_1
        12.5%
        50%
        126 bp
        20.3
        SRR13434546_2
        12.2%
        50%
        126 bp
        20.3
        SRR13434547_1
        19.9%
        51%
        126 bp
        13.0
        SRR13434547_2
        19.9%
        51%
        126 bp
        13.0
        SRR13434549_1
        10.8%
        51%
        126 bp
        12.8
        SRR13434549_2
        10.5%
        51%
        126 bp
        12.8
        SRR13434550_1
        14.7%
        50%
        126 bp
        18.2
        SRR13434550_2
        14.3%
        50%
        126 bp
        18.2
        SRR13434551_1
        9.5%
        50%
        126 bp
        18.5
        SRR13434551_2
        9.1%
        50%
        126 bp
        18.5
        SRR13434552_1
        10.0%
        51%
        126 bp
        10.3
        SRR13434552_2
        10.0%
        51%
        126 bp
        10.3
        SRR13434553_1
        19.7%
        51%
        126 bp
        20.0
        SRR13434553_2
        18.8%
        51%
        126 bp
        20.0
        SRR13434554_1
        19.1%
        51%
        126 bp
        18.3
        SRR13434554_2
        18.9%
        51%
        126 bp
        18.3
        SRR13434555_1
        18.9%
        51%
        126 bp
        14.4
        SRR13434555_2
        19.1%
        52%
        126 bp
        14.4
        SRR13434556_1
        17.2%
        51%
        126 bp
        20.1
        SRR13434556_2
        17.3%
        51%
        126 bp
        20.1
        SRR13434557_1
        11.8%
        50%
        126 bp
        17.8
        SRR13434557_2
        11.8%
        50%
        126 bp
        17.8
        SRR13434558_1
        11.0%
        51%
        126 bp
        19.9
        SRR13434558_2
        11.1%
        51%
        126 bp
        19.9
        SRR13434560_1
        11.7%
        51%
        126 bp
        16.2
        SRR13434560_2
        11.7%
        51%
        126 bp
        16.2
        SRR13434561_1
        11.6%
        50%
        126 bp
        15.1
        SRR13434561_2
        11.5%
        50%
        126 bp
        15.1
        SRR13434562_1
        21.1%
        52%
        126 bp
        26.1
        SRR13434562_2
        20.4%
        52%
        126 bp
        26.1
        SRR13434563_1
        14.4%
        51%
        126 bp
        21.2
        SRR13434563_2
        14.1%
        51%
        126 bp
        21.2
        SRR13434564_1
        16.0%
        52%
        126 bp
        20.7
        SRR13434564_2
        15.4%
        52%
        126 bp
        20.7
        SRR13434565_1
        13.9%
        52%
        126 bp
        15.8
        SRR13434565_2
        13.6%
        52%
        126 bp
        15.8
        SRR13434566_1
        10.1%
        52%
        126 bp
        16.8
        SRR13434566_2
        9.9%
        52%
        126 bp
        16.8
        SRR13434567_1
        17.1%
        52%
        126 bp
        16.6
        SRR13434567_2
        16.6%
        52%
        126 bp
        16.6
        SRR13434568_1
        14.4%
        52%
        126 bp
        12.4
        SRR13434568_2
        14.2%
        52%
        126 bp
        12.4
        SRR13434569_1
        20.0%
        51%
        126 bp
        24.1
        SRR13434569_2
        19.4%
        51%
        126 bp
        24.1
        SRR13434571_1
        14.6%
        51%
        126 bp
        19.4
        SRR13434571_2
        14.3%
        50%
        126 bp
        19.4
        SRR13434572_1
        17.4%
        52%
        126 bp
        22.8
        SRR13434572_2
        17.0%
        52%
        126 bp
        22.8
        SRR13434573_1
        15.6%
        51%
        126 bp
        28.4
        SRR13434573_2
        15.3%
        51%
        126 bp
        28.4
        SRR13434574_1
        11.6%
        51%
        126 bp
        20.3
        SRR13434574_2
        11.4%
        51%
        126 bp
        20.3
        SRR13434575_1
        13.5%
        51%
        126 bp
        14.8
        SRR13434575_2
        13.7%
        51%
        126 bp
        14.8
        SRR13434576_1
        18.7%
        50%
        126 bp
        16.5
        SRR13434576_2
        18.9%
        50%
        126 bp
        16.5
        SRR13434577_1
        13.3%
        52%
        126 bp
        14.5
        SRR13434577_2
        13.5%
        52%
        126 bp
        14.5
        SRR13434578_1
        6.7%
        48%
        126 bp
        7.5
        SRR13434578_2
        6.6%
        48%
        126 bp
        7.5
        SRR13434579_1
        10.5%
        51%
        126 bp
        11.1
        SRR13434579_2
        10.7%
        51%
        126 bp
        11.1
        SRR13434580_1
        14.2%
        49%
        126 bp
        21.7
        SRR13434580_2
        14.6%
        49%
        126 bp
        21.7
        SRR13434582_1
        15.0%
        51%
        151 bp
        21.9
        SRR13434582_2
        14.3%
        51%
        151 bp
        21.9
        SRR13434583_1
        17.6%
        52%
        151 bp
        21.1
        SRR13434583_2
        16.8%
        51%
        151 bp
        21.1
        SRR13434584_1
        21.3%
        50%
        151 bp
        24.8
        SRR13434584_2
        18.6%
        49%
        151 bp
        24.8
        SRR13434585_1
        22.3%
        51%
        126 bp
        39.3
        SRR13434585_2
        21.9%
        51%
        126 bp
        39.3
        SRR13434586_1
        13.9%
        50%
        126 bp
        16.9
        SRR13434586_2
        13.5%
        50%
        126 bp
        16.9
        SRR13434587_1
        14.9%
        50%
        126 bp
        25.6
        SRR13434587_2
        14.6%
        50%
        126 bp
        25.6
        SRR13434591_1
        28.8%
        50%
        151 bp
        28.3
        SRR13434591_2
        25.9%
        50%
        151 bp
        28.3
        SRR13434592_1
        17.6%
        50%
        151 bp
        12.4
        SRR13434592_2
        16.7%
        50%
        151 bp
        12.4
        SRR13434595_1
        14.0%
        51%
        151 bp
        10.6
        SRR13434595_2
        12.8%
        51%
        151 bp
        10.6
        SRR13434597_1
        18.0%
        51%
        151 bp
        13.1
        SRR13434597_2
        17.3%
        51%
        151 bp
        13.1
        SRR13434598_1
        21.6%
        46%
        151 bp
        31.6
        SRR13434598_2
        19.4%
        46%
        151 bp
        31.6
        SRR13434599_1
        22.4%
        48%
        151 bp
        36.1
        SRR13434599_2
        20.5%
        48%
        151 bp
        36.1
        SRR13434600_1
        24.2%
        47%
        151 bp
        27.3
        SRR13434600_2
        21.6%
        47%
        151 bp
        27.3
        SRR13434601_1
        15.3%
        46%
        151 bp
        20.1
        SRR13434601_2
        15.0%
        44%
        151 bp
        20.1
        SRR13434602_1
        18.8%
        49%
        151 bp
        10.6
        SRR13434602_2
        17.9%
        49%
        151 bp
        10.6
        SRR13434603_1
        16.6%
        49%
        151 bp
        26.9
        SRR13434603_2
        14.8%
        49%
        151 bp
        26.9
        SRR13434604_1
        26.8%
        51%
        151 bp
        42.8
        SRR13434604_2
        23.0%
        51%
        151 bp
        42.8
        SRR13434605_1
        21.9%
        54%
        151 bp
        36.6
        SRR13434605_2
        18.3%
        54%
        151 bp
        36.6
        SRR13434606_1
        20.8%
        49%
        151 bp
        25.9
        SRR13434606_2
        18.0%
        49%
        151 bp
        25.9
        SRR13434609_1
        15.6%
        48%
        151 bp
        28.2
        SRR13434609_2
        14.5%
        48%
        151 bp
        28.2
        SRR13434610_1
        21.8%
        48%
        151 bp
        43.9
        SRR13434610_2
        18.9%
        48%
        151 bp
        43.9
        SRR13434611_1
        20.9%
        50%
        151 bp
        34.7
        SRR13434611_2
        17.5%
        50%
        151 bp
        34.7
        SRR13434612_1
        18.8%
        48%
        151 bp
        14.7
        SRR13434612_2
        17.5%
        48%
        151 bp
        14.7
        SRR13434614_1
        23.8%
        53%
        151 bp
        35.2
        SRR13434614_2
        21.2%
        53%
        151 bp
        35.2
        SRR13434615_1
        14.4%
        49%
        151 bp
        14.7
        SRR13434615_2
        14.0%
        49%
        151 bp
        14.7
        SRR13434616_1
        8.7%
        46%
        151 bp
        16.1
        SRR13434616_2
        8.4%
        45%
        151 bp
        16.1
        SRR13434617_1
        18.1%
        53%
        151 bp
        19.7
        SRR13434617_2
        15.6%
        53%
        151 bp
        19.7
        SRR13434618_1
        18.1%
        52%
        151 bp
        23.0
        SRR13434618_2
        14.9%
        53%
        151 bp
        23.0
        SRR13434620_1
        29.0%
        43%
        151 bp
        17.2
        SRR13434620_2
        27.3%
        43%
        151 bp
        17.2
        SRR13434621_1
        21.2%
        44%
        151 bp
        11.8
        SRR13434621_2
        20.9%
        43%
        151 bp
        11.8
        SRR13434622_1
        20.9%
        44%
        151 bp
        16.9
        SRR13434622_2
        19.2%
        44%
        151 bp
        16.9
        SRR13434623_1
        16.4%
        48%
        151 bp
        23.9
        SRR13434623_2
        13.0%
        48%
        151 bp
        23.9
        SRR13434624_1
        18.7%
        48%
        151 bp
        26.3
        SRR13434624_2
        15.6%
        48%
        151 bp
        26.3
        SRR13434625_1
        19.3%
        50%
        151 bp
        23.2
        SRR13434625_2
        15.9%
        50%
        151 bp
        23.2
        SRR13434626_1
        16.9%
        47%
        151 bp
        15.3
        SRR13434626_2
        16.3%
        47%
        151 bp
        15.3
        SRR13434627_1
        23.7%
        45%
        151 bp
        11.1
        SRR13434627_2
        22.2%
        45%
        151 bp
        11.1
        SRR13434628_1
        13.2%
        49%
        151 bp
        12.8
        SRR13434628_2
        12.3%
        48%
        151 bp
        12.8
        SRR13434629_1
        17.6%
        52%
        151 bp
        32.8
        SRR13434629_2
        11.5%
        53%
        151 bp
        32.8
        SRR13434631_1
        15.7%
        52%
        151 bp
        26.8
        SRR13434631_2
        12.4%
        52%
        151 bp
        26.8
        SRR13434632_1
        21.2%
        52%
        151 bp
        37.0
        SRR13434632_2
        16.7%
        52%
        151 bp
        37.0
        SRR13434633_1
        24.0%
        48%
        151 bp
        34.9
        SRR13434633_2
        21.2%
        48%
        151 bp
        34.9
        SRR13434634_1
        21.1%
        49%
        151 bp
        25.8
        SRR13434634_2
        17.8%
        50%
        151 bp
        25.8
        SRR13434643_1
        23.6%
        51%
        151 bp
        29.8
        SRR13434643_2
        20.4%
        51%
        151 bp
        29.8
        SRR13434644_1
        21.0%
        53%
        151 bp
        23.9
        SRR13434644_2
        17.4%
        53%
        151 bp
        23.9
        SRR13434645_1
        31.8%
        51%
        151 bp
        26.6
        SRR13434645_2
        26.1%
        51%
        151 bp
        26.6
        SRR13434646_1
        24.0%
        49%
        151 bp
        26.7
        SRR13434646_2
        20.0%
        49%
        151 bp
        26.7
        SRR13434647_1
        29.4%
        46%
        151 bp
        26.7
        SRR13434647_2
        26.0%
        47%
        151 bp
        26.7
        SRR13434649_1
        24.2%
        49%
        151 bp
        32.1
        SRR13434649_2
        20.9%
        49%
        151 bp
        32.1
        SRR13434654_1
        21.6%
        48%
        151 bp
        25.7
        SRR13434654_2
        19.3%
        48%
        151 bp
        25.7
        SRR13434655_1
        20.7%
        49%
        151 bp
        24.7
        SRR13434655_2
        17.3%
        49%
        151 bp
        24.7
        SRR13434662_1
        22.3%
        50%
        151 bp
        21.6
        SRR13434662_2
        17.7%
        50%
        151 bp
        21.6
        SRR13434665_1
        22.7%
        46%
        151 bp
        25.1
        SRR13434665_2
        18.6%
        47%
        151 bp
        25.1
        SRR13434666_1
        25.3%
        49%
        151 bp
        31.3
        SRR13434666_2
        21.2%
        50%
        151 bp
        31.3
        SRR13434667_1
        19.6%
        51%
        151 bp
        31.1
        SRR13434667_2
        15.3%
        51%
        151 bp
        31.1
        SRR13434668_1
        10.7%
        49%
        151 bp
        8.5
        SRR13434668_2
        10.3%
        49%
        151 bp
        8.5
        SRR13434669_1
        24.6%
        49%
        151 bp
        17.0
        SRR13434669_2
        22.1%
        49%
        151 bp
        17.0
        SRR13434670_1
        20.5%
        53%
        151 bp
        11.9
        SRR13434670_2
        19.1%
        53%
        151 bp
        11.9
        SRR13434671_1
        18.9%
        51%
        151 bp
        19.1
        SRR13434671_2
        15.7%
        51%
        151 bp
        19.1
        SRR13434673_1
        8.7%
        43%
        151 bp
        12.4
        SRR13434673_2
        8.5%
        43%
        151 bp
        12.4
        SRR13434675_1
        19.2%
        47%
        151 bp
        20.8
        SRR13434675_2
        16.7%
        47%
        151 bp
        20.8
        SRR13434676_1
        20.6%
        49%
        151 bp
        31.2
        SRR13434676_2
        17.4%
        49%
        151 bp
        31.2
        SRR13434677_1
        31.5%
        45%
        151 bp
        24.3
        SRR13434677_2
        28.2%
        46%
        151 bp
        24.3
        SRR13434680_1
        24.6%
        47%
        151 bp
        29.0
        SRR13434680_2
        22.4%
        47%
        151 bp
        29.0
        SRR13434681_1
        27.0%
        49%
        151 bp
        35.3
        SRR13434681_2
        24.2%
        49%
        151 bp
        35.3
        SRR13434686_1
        72.0%
        45%
        151 bp
        50.7
        SRR13434686_2
        66.2%
        45%
        151 bp
        50.7
        SRR13434687_1
        23.1%
        51%
        151 bp
        40.3
        SRR13434687_2
        21.2%
        51%
        151 bp
        40.3
        SRR13434688_1
        40.8%
        49%
        151 bp
        36.2
        SRR13434688_2
        35.6%
        50%
        151 bp
        36.2
        SRR13434689_1
        14.1%
        50%
        151 bp
        30.7
        SRR13434689_2
        12.4%
        50%
        151 bp
        30.7
        SRR13434690_1
        18.3%
        48%
        151 bp
        34.8
        SRR13434690_2
        16.6%
        48%
        151 bp
        34.8
        SRR13434691_1
        14.8%
        50%
        151 bp
        28.0
        SRR13434691_2
        13.3%
        50%
        151 bp
        28.0
        SRR13434692_1
        17.5%
        48%
        151 bp
        27.3
        SRR13434692_2
        15.3%
        48%
        151 bp
        27.3
        SRR13434693_1
        31.5%
        50%
        151 bp
        29.0
        SRR13434693_2
        28.6%
        50%
        151 bp
        29.0
        SRR13434694_1
        33.2%
        49%
        151 bp
        37.9
        SRR13434694_2
        29.2%
        49%
        151 bp
        37.9
        SRR13434695_1
        13.8%
        46%
        151 bp
        14.4
        SRR13434695_2
        11.0%
        46%
        151 bp
        14.4
        SRR13434697_1
        19.5%
        49%
        151 bp
        15.2
        SRR13434697_2
        15.3%
        49%
        151 bp
        15.2
        SRR13434698_1
        9.0%
        51%
        151 bp
        14.6
        SRR13434698_2
        7.5%
        51%
        151 bp
        14.6
        SRR13434699_1
        13.6%
        52%
        151 bp
        19.1
        SRR13434699_2
        11.6%
        52%
        151 bp
        19.1
        SRR13434700_1
        17.1%
        48%
        151 bp
        16.8
        SRR13434700_2
        14.7%
        48%
        151 bp
        16.8
        SRR13434701_1
        18.2%
        48%
        151 bp
        15.1
        SRR13434701_2
        16.3%
        48%
        151 bp
        15.1
        SRR13434702_1
        18.3%
        48%
        151 bp
        14.3
        SRR13434702_2
        15.9%
        49%
        151 bp
        14.3
        SRR13434703_1
        14.7%
        48%
        151 bp
        18.9
        SRR13434703_2
        12.9%
        48%
        151 bp
        18.9
        SRR13434704_1
        17.2%
        49%
        151 bp
        21.9
        SRR13434704_2
        16.0%
        48%
        151 bp
        21.9
        SRR13434705_1
        7.2%
        49%
        151 bp
        8.6
        SRR13434705_2
        6.0%
        49%
        151 bp
        8.6
        SRR13434706_1
        11.3%
        49%
        151 bp
        24.0
        SRR13434706_2
        10.9%
        49%
        151 bp
        24.0
        SRR13434708_1
        22.6%
        48%
        151 bp
        18.5
        SRR13434708_2
        20.6%
        48%
        151 bp
        18.5
        SRR13434709_1
        15.0%
        50%
        151 bp
        12.9
        SRR13434709_2
        12.8%
        50%
        151 bp
        12.9
        SRR13434710_1
        23.3%
        49%
        151 bp
        21.3
        SRR13434710_2
        20.8%
        49%
        151 bp
        21.3
        SRR13434711_1
        11.0%
        50%
        151 bp
        24.3
        SRR13434711_2
        10.3%
        50%
        151 bp
        24.3
        SRR13434712_1
        13.7%
        49%
        151 bp
        18.2
        SRR13434712_2
        12.2%
        49%
        151 bp
        18.2
        SRR13434713_1
        21.3%
        50%
        151 bp
        16.9
        SRR13434713_2
        19.5%
        50%
        151 bp
        16.9
        SRR13434714_1
        10.9%
        48%
        151 bp
        17.6
        SRR13434714_2
        10.0%
        48%
        151 bp
        17.6
        SRR13434715_1
        11.5%
        48%
        151 bp
        18.8
        SRR13434715_2
        10.9%
        48%
        151 bp
        18.8
        SRR13434716_1
        17.0%
        49%
        151 bp
        20.2
        SRR13434716_2
        15.9%
        48%
        151 bp
        20.2
        SRR13434717_1
        15.8%
        49%
        151 bp
        21.1
        SRR13434717_2
        14.5%
        49%
        151 bp
        21.1

        FastQC

        FastQC is a quality control tool for high throughput sequence data, written by Simon Andrews at the Babraham Institute in Cambridge.

        Sequence Counts

        Sequence counts for each sample. Duplicate read counts are an estimate only.

        This plot show the total number of reads, broken down into unique and duplicate if possible (only more recent versions of FastQC give duplicate info).

        You can read more about duplicate calculation in the FastQC documentation. A small part has been copied here for convenience:

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

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        Sequence Quality Histograms

        The mean quality value across each base position in the read.

        To enable multiple samples to be plotted on the same graph, only the mean quality scores are plotted (unlike the box plots seen in FastQC reports).

        Taken from the FastQC help:

        The y-axis on the graph shows the quality scores. The higher the score, the better the base call. The background of the graph divides the y axis into very good quality calls (green), calls of reasonable quality (orange), and calls of poor quality (red). The quality of calls on most platforms will degrade as the run progresses, so it is common to see base calls falling into the orange area towards the end of a read.

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        Per Sequence Quality Scores

        The number of reads with average quality scores. Shows if a subset of reads has poor quality.

        From the FastQC help:

        The per sequence quality score report allows you to see if a subset of your sequences have universally low quality values. It is often the case that a subset of sequences will have universally poor quality, however these should represent only a small percentage of the total sequences.

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        Per Base Sequence Content

        The proportion of each base position for which each of the four normal DNA bases has been called.

        To enable multiple samples to be shown in a single plot, the base composition data is shown as a heatmap. The colours represent the balance between the four bases: an even distribution should give an even muddy brown colour. Hover over the plot to see the percentage of the four bases under the cursor.

        To see the data as a line plot, as in the original FastQC graph, click on a sample track.

        From the FastQC help:

        Per Base Sequence Content plots out the proportion of each base position in a file for which each of the four normal DNA bases has been called.

        In a random library you would expect that there would be little to no difference between the different bases of a sequence run, so the lines in this plot should run parallel with each other. The relative amount of each base should reflect the overall amount of these bases in your genome, but in any case they should not be hugely imbalanced from each other.

        It's worth noting that some types of library will always produce biased sequence composition, normally at the start of the read. Libraries produced by priming using random hexamers (including nearly all RNA-Seq libraries) and those which were fragmented using transposases inherit an intrinsic bias in the positions at which reads start. This bias does not concern an absolute sequence, but instead provides enrichement of a number of different K-mers at the 5' end of the reads. Whilst this is a true technical bias, it isn't something which can be corrected by trimming and in most cases doesn't seem to adversely affect the downstream analysis.

        Click a sample row to see a line plot for that dataset.
        Rollover for sample name
        Position: -
        %T: -
        %C: -
        %A: -
        %G: -

        Per Sequence GC Content

        The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content.

        From the FastQC help:

        This module measures the GC content across the whole length of each sequence in a file and compares it to a modelled normal distribution of GC content.

        In a normal random library you would expect to see a roughly normal distribution of GC content where the central peak corresponds to the overall GC content of the underlying genome. Since we don't know the the GC content of the genome the modal GC content is calculated from the observed data and used to build a reference distribution.

        An unusually shaped distribution could indicate a contaminated library or some other kinds of biased subset. A normal distribution which is shifted indicates some systematic bias which is independent of base position. If there is a systematic bias which creates a shifted normal distribution then this won't be flagged as an error by the module since it doesn't know what your genome's GC content should be.

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        Per Base N Content

        The percentage of base calls at each position for which an N was called.

        From the FastQC help:

        If a sequencer is unable to make a base call with sufficient confidence then it will normally substitute an N rather than a conventional base call. This graph shows the percentage of base calls at each position for which an N was called.

        It's not unusual to see a very low proportion of Ns appearing in a sequence, especially nearer the end of a sequence. However, if this proportion rises above a few percent it suggests that the analysis pipeline was unable to interpret the data well enough to make valid base calls.

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        Sequence Length Distribution

        All samples have sequences of a single length (126bp , 151bp). See the General Statistics Table.

        Sequence Duplication Levels

        The relative level of duplication found for every sequence.

        From the FastQC Help:

        In a diverse library most sequences will occur only once in the final set. A low level of duplication may indicate a very high level of coverage of the target sequence, but a high level of duplication is more likely to indicate some kind of enrichment bias (eg PCR over amplification). This graph shows the degree of duplication for every sequence in a library: the relative number of sequences with different degrees of duplication.

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        In a properly diverse library most sequences should fall into the far left of the plot in both the red and blue lines. A general level of enrichment, indicating broad oversequencing in the library will tend to flatten the lines, lowering the low end and generally raising other categories. More specific enrichments of subsets, or the presence of low complexity contaminants will tend to produce spikes towards the right of the plot.

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        Overrepresented sequences

        The total amount of overrepresented sequences found in each library.

        FastQC calculates and lists overrepresented sequences in FastQ files. It would not be possible to show this for all samples in a MultiQC report, so instead this plot shows the number of sequences categorized as over represented.

        Sometimes, a single sequence may account for a large number of reads in a dataset. To show this, the bars are split into two: the first shows the overrepresented reads that come from the single most common sequence. The second shows the total count from all remaining overrepresented sequences.

        From the FastQC Help:

        A normal high-throughput library will contain a diverse set of sequences, with no individual sequence making up a tiny fraction of the whole. Finding that a single sequence is very overrepresented in the set either means that it is highly biologically significant, or indicates that the library is contaminated, or not as diverse as you expected.

        FastQC lists all of the sequences which make up more than 0.1% of the total. To conserve memory only sequences which appear in the first 100,000 sequences are tracked to the end of the file. It is therefore possible that a sequence which is overrepresented but doesn't appear at the start of the file for some reason could be missed by this module.

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        Adapter Content

        The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position.

        Note that only samples with ≥ 0.1% adapter contamination are shown.

        There may be several lines per sample, as one is shown for each adapter detected in the file.

        From the FastQC Help:

        The plot shows a cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. Once a sequence has been seen in a read it is counted as being present right through to the end of the read so the percentages you see will only increase as the read length goes on.

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        Status Checks

        Status for each FastQC section showing whether results seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        FastQC assigns a status for each section of the report. These give a quick evaluation of whether the results of the analysis seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        It is important to stress that although the analysis results appear to give a pass/fail result, these evaluations must be taken in the context of what you expect from your library. A 'normal' sample as far as FastQC is concerned is random and diverse. Some experiments may be expected to produce libraries which are biased in particular ways. You should treat the summary evaluations therefore as pointers to where you should concentrate your attention and understand why your library may not look random and diverse.

        Specific guidance on how to interpret the output of each module can be found in the relevant report section, or in the FastQC help.

        In this heatmap, we summarise all of these into a single heatmap for a quick overview. Note that not all FastQC sections have plots in MultiQC reports, but all status checks are shown in this heatmap.

        loading..

        MultiQC v1.14 - Written by Phil Ewels, available on GitHub.

        This report uses HighCharts, jQuery, jQuery UI, Bootstrap, FileSaver.js and clipboard.js.